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Volumn 19, Issue SUPPL. 1, 2003, Pages

Predicting protein function from protein/protein interaction data: A probabilistic approach

Author keywords

Gene ontology; Markov Random fields; Protein function prediction; Protein protein interaction

Indexed keywords

ALGORITHM; BINOMIAL DISTRIBUTION; CONFERENCE PAPER; NONHUMAN; PREDICTION; PRIORITY JOURNAL; PROBABILITY; PROTEIN FUNCTION; PROTEIN PROTEIN INTERACTION; SACCHAROMYCES CEREVISIAE; ARTICLE; BIOLOGICAL MODEL; CLASSIFICATION; COMPARATIVE STUDY; EVALUATION; METABOLISM; METHODOLOGY; PROTEIN ANALYSIS; PROTEIN DATABASE; STATISTICAL MODEL; STRUCTURE ACTIVITY RELATION; VALIDATION STUDY;

EID: 1542271409     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/btg1026     Document Type: Conference Paper
Times cited : (329)

References (34)
  • 1
    • 0025183708 scopus 로고
    • Basic local alignment search tool
    • Altschul, S.F., Gish, W. et al. (1990) Basic local alignment search tool. J. Mol. Biol., 215, 403-410.
    • (1990) J. Mol. Biol. , vol.215 , pp. 403-410
    • Altschul, S.F.1    Gish, W.2
  • 2
    • 0037424398 scopus 로고    scopus 로고
    • Direct interaction with a Kinesin-related motor mediates transport of mammalian discs large tumor suppressor homologue in epithelial cells
    • Asaba, N., Hanada, T. et al. (2003) Direct interaction with a Kinesin-related motor mediates transport of mammalian discs large tumor suppressor homologue in epithelial cells. J. Biol. Chem., 278, 8395-8400.
    • (2003) J. Biol. Chem. , vol.278 , pp. 8395-8400
    • Asaba, N.1    Hanada, T.2
  • 3
    • 0034069495 scopus 로고    scopus 로고
    • Gene ontology: Tool for the unification of biology
    • The Gene Ontology Consortium
    • Ashburner, M., Ball, C.A. et al. (2000) Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat. Genet., 25, 25-29.
    • (2000) Nat. Genet. , vol.25 , pp. 25-29
    • Ashburner, M.1    Ball, C.A.2
  • 4
    • 0035171884 scopus 로고    scopus 로고
    • BIND - The Biomolecular Interaction Network Database
    • Bader, G.D., Donaldson, I. et al. (2001) BIND - the Biomolecular Interaction Network Database. Nucleic Acids Res., 29, 242-245.
    • (2001) Nucleic Acids Res. , vol.29 , pp. 242-245
    • Bader, G.D.1    Donaldson, I.2
  • 5
    • 0036789265 scopus 로고    scopus 로고
    • Analyzing yeast protein-protein interaction data obtained from different sources
    • Bader, G.D. and Hogue, C.W. (2002) Analyzing yeast protein-protein interaction data obtained from different sources. Nat. Biotechnol., 20, 991-997.
    • (2002) Nat. Biotechnol. , vol.20 , pp. 991-997
    • Bader, G.D.1    Hogue, C.W.2
  • 6
    • 0038210252 scopus 로고    scopus 로고
    • The GRID: The general repository for interaction datasets
    • Breitkreutz, B.J., Stark, C. et al. (2002) The GRID: the General Repository for Interaction Datasets. Genome Biol., 3).
    • (2002) Genome Biol. , vol.3
    • Breitkreutz, B.J.1    Stark, C.2
  • 7
    • 0033533502 scopus 로고    scopus 로고
    • Gene expressions of opioid receptors and G-proteins in pineal glands
    • Chetsawang, B., Casalotti, S.O. et al. (1999) Gene expressions of opioid receptors and G-proteins in pineal glands. Biochem. Biophys. Res. Commun., 262, 775-780.
    • (1999) Biochem. Biophys. Res. Commun. , vol.262 , pp. 775-780
    • Chetsawang, B.1    Casalotti, S.O.2
  • 8
    • 0035989971 scopus 로고    scopus 로고
    • Sno-capped: 5′ ends of preribosomal RNAs are decorated with a U3 SnoRNP
    • Culver, G.M. (2002) Sno-capped: 5′ ends of preribosomal RNAs are decorated with a U3 SnoRNP. Chem. Biol., 9, 777-779.
    • (2002) Chem. Biol. , vol.9 , pp. 777-779
    • Culver, G.M.1
  • 9
    • 0036087548 scopus 로고    scopus 로고
    • Saccharomyces Genome Database (SGD) provides secondary gene annotation using the Gene Ontology (GO)
    • Dwight, S.S., Harris, M.A. et al. (2002) Saccharomyces Genome Database (SGD) provides secondary gene annotation using the Gene Ontology (GO). Nucleic Acids Res., 30, 69-72.
    • (2002) Nucleic Acids Res. , vol.30 , pp. 69-72
    • Dwight, S.S.1    Harris, M.A.2
  • 10
    • 0033523989 scopus 로고    scopus 로고
    • Protein interaction maps for complete genomes based on gene fusion events
    • Enright, A.J., Iliopoulos, I. et al. (1999) Protein interaction maps for complete genomes based on gene fusion events. Nature, 402, 86-90.
    • (1999) Nature , vol.402 , pp. 86-90
    • Enright, A.J.1    Iliopoulos, I.2
  • 11
    • 0032242111 scopus 로고    scopus 로고
    • Microbial genescapes: Phyletic and functional patterns of ORF distribution among prokaryotes
    • Gaasterland, T. and Ragan, M.A. (1998) Microbial genescapes: phyletic and functional patterns of ORF distribution among prokaryotes. Microb. Comp. Genomics, 3, 199-217.
    • (1998) Microb. Comp. Genomics , vol.3 , pp. 199-217
    • Gaasterland, T.1    Ragan, M.A.2
  • 12
    • 0037050026 scopus 로고    scopus 로고
    • Functional organization of the yeast proteome by systematic analysis of protein complexes
    • Gavin, A.C., Bosche, M. et al. (2002) Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature, 415, 141-147.
    • (2002) Nature , vol.415 , pp. 141-147
    • Gavin, A.C.1    Bosche, M.2
  • 14
    • 0037050004 scopus 로고    scopus 로고
    • Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry
    • Ho, Y., Gruhler, A. et al. (2002) Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature, 415, 180-183.
    • (2002) Nature , vol.415 , pp. 180-183
    • Ho, Y.1    Gruhler, A.2
  • 15
    • 0035836765 scopus 로고    scopus 로고
    • A comprehensive two-hybrid analysis to explore the yeast protein interactome
    • Ito, T., Chiba, T. et al. (2001a) A comprehensive two-hybrid analysis to explore the yeast protein interactome. Proc. Natl Acad. Sci. USA, 98, 4569-1574.
    • (2001) Proc. Natl Acad. Sci. USA , vol.98 , pp. 4569-11574
    • Ito, T.1    Chiba, T.2
  • 16
    • 0010656061 scopus 로고    scopus 로고
    • Exploring the protein interactome using comprehensive two-hybrid projects
    • Ito, T., Chiba, T. et al. (2001b) Exploring the protein interactome using comprehensive two-hybrid projects. Trends Biotechnol., 19 (Suppl 10), S23-S27.
    • (2001) Trends Biotechnol. , vol.19 , Issue.SUPPL. 10
    • Ito, T.1    Chiba, T.2
  • 17
    • 0033523854 scopus 로고    scopus 로고
    • A combined algorithm for genome-wide prediction of protein function
    • Marcotte, E.M., Pellegrini, M. et al. (1999) A combined algorithm for genome-wide prediction of protein function. Nature, 402, 83-86.
    • (1999) Nature , vol.402 , pp. 83-86
    • Marcotte, E.M.1    Pellegrini, M.2
  • 18
    • 0036081347 scopus 로고    scopus 로고
    • MIPS: A database for genomes and protein sequences
    • Mewes, H.W., Frishman, D. et al. (2002) MIPS: a database for genomes and protein sequences. Nucleic Acids Res., 30, 31-34.
    • (2002) Nucleic Acids Res. , vol.30 , pp. 31-34
    • Mewes, H.W.1    Frishman, D.2
  • 19
    • 0037085022 scopus 로고    scopus 로고
    • Effect of the new matrix metalloproteinase inhibitor RO-28-2653 on mitochondrial function
    • Opalka, J.R., Gellerich, F.N. et al. (2002) Effect of the new matrix metalloproteinase inhibitor RO-28-2653 on mitochondrial function. Biochem. Pharmacol., 63, 725-732.
    • (2002) Biochem. Pharmacol. , vol.63 , pp. 725-732
    • Opalka, J.R.1    Gellerich, F.N.2
  • 20
    • 0033055062 scopus 로고    scopus 로고
    • The use of gene clusters to infer functional coupling
    • Overbeek, R., Fonstein, M. et al. (1999) The use of gene clusters to infer functional coupling. Proc. Natl Acad. Sci. USA, 96, 2896-2901.
    • (1999) Proc. Natl Acad. Sci. USA , vol.96 , pp. 2896-2901
    • Overbeek, R.1    Fonstein, M.2
  • 22
    • 0033551248 scopus 로고    scopus 로고
    • Assigning protein functions by comparative genome analysis: Protein phylogenetic profiles
    • Pellegrini, M., Marcotte, E.M. et al. (1999) Assigning protein functions by comparative genome analysis: protein phylogenetic profiles. Proc. Natl Acad. Sci. USA, 96, 4285-4288.
    • (1999) Proc. Natl Acad. Sci. USA , vol.96 , pp. 4285-4288
    • Pellegrini, M.1    Marcotte, E.M.2
  • 23
    • 0033669189 scopus 로고    scopus 로고
    • A network of protein-protein interactions in yeast
    • Schwikowski, B., Uetz, P. et al. (2000) A network of protein-protein interactions in yeast. Nat. Biotechnol., 18, 1257-1261.
    • (2000) Nat. Biotechnol. , vol.18 , pp. 1257-1261
    • Schwikowski, B.1    Uetz, P.2
  • 24
    • 0037249406 scopus 로고    scopus 로고
    • The FlyBase database of the Drosophila genome projects and community literature
    • The Flybase Consortium (2003) The FlyBase database of the Drosophila genome projects and community literature. Nucleic Acids Res., 31, 172-175.
    • (2003) Nucleic Acids Res. , vol.31 , pp. 172-175
  • 25
    • 0034887203 scopus 로고    scopus 로고
    • Creating the gene ontology resource: Design and implementation
    • The Gene Ontology Consortium (2001) Creating the gene ontology resource: design and implementation. Genome Res., 11, 1425-1433.
    • (2001) Genome Res. , vol.11 , pp. 1425-1433
  • 26
    • 0035861532 scopus 로고    scopus 로고
    • Systematic genetic analysis with ordered arrays of yeast deletion mutants
    • Tong, A.H., Evangelista, M. et al. (2001) Systematic genetic analysis with ordered arrays of yeast deletion mutants. Science, 294, 2364-2368.
    • (2001) Science , vol.294 , pp. 2364-2368
    • Tong, A.H.1    Evangelista, M.2
  • 28
    • 0036646488 scopus 로고    scopus 로고
    • PA200, a nuclear proteasome activator involved in DNA repair
    • Ustrell, V., Hoffman, L. et al. (2002) PA200, a nuclear proteasome activator involved in DNA repair. Embo J., 21, 3516-3525.
    • (2002) Embo J. , vol.21 , pp. 3516-3525
    • Ustrell, V.1    Hoffman, L.2
  • 29
    • 0040602752 scopus 로고    scopus 로고
    • HMG1 proteins from evolutionary distant organisms distort B-DNA conformation in similar way
    • Wisniewski, J.R., Krohn, N.M. et al. (1999) HMG1 proteins from evolutionary distant organisms distort B-DNA conformation in similar way. Biochim. Biophys. Acta, 1447, 25-34.
    • (1999) Biochim. Biophys. Acta , vol.1447 , pp. 25-34
    • Wisniewski, J.R.1    Krohn, N.M.2
  • 30
    • 0034940467 scopus 로고    scopus 로고
    • Genes linked by fusion events are generally of the same functional category: A systematic analysis of 30 microbial genomes
    • Yanai, I., Derti, A. et al. (2001) Genes linked by fusion events are generally of the same functional category: a systematic analysis of 30 microbial genomes. Proc. Natl Acad. Sci USA, 98, 7940-7945.
    • (2001) Proc. Natl Acad. Sci USA , vol.98 , pp. 7940-7945
    • Yanai, I.1    Derti, A.2
  • 31
    • 0036533931 scopus 로고    scopus 로고
    • Identifying functional links between genes using conserved chromosomal proximity
    • Yanai, I., Mellor, J.C. et al. (2002) Identifying functional links between genes using conserved chromosomal proximity. Trends Genet., 18, 176-179.
    • (2002) Trends Genet. , vol.18 , pp. 176-179
    • Yanai, I.1    Mellor, J.C.2
  • 33
    • 0037057376 scopus 로고    scopus 로고
    • Genomic functional annotation using co-evolution profiles of gene clusters
    • RESEARCH0060
    • Zheng, Y., Roberts, R.J. et al. (2002) Genomic functional annotation using co-evolution profiles of gene clusters. Genome Biol., 3, RESEARCH0060.
    • (2002) Genome Biol. , vol.3
    • Zheng, Y.1    Roberts, R.J.2
  • 34
    • 0036790999 scopus 로고    scopus 로고
    • Transitive functional annotation by shortest-path analysis of gene expression data
    • Zhou, X., Kao, M.C. et al. (2002) Transitive functional annotation by shortest-path analysis of gene expression data. Proc Natl Acad. Sci. USA, 99, 12783-12788.
    • (2002) Proc Natl Acad. Sci. USA , vol.99 , pp. 12783-12788
    • Zhou, X.1    Kao, M.C.2


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